HHsearch alignment for GI: 254780833 and conserved domain: cd01458
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=96.75 E-value=0.037 Score=31.40 Aligned_cols=156 Identities=13% Similarity=0.157 Sum_probs=85.2
Q ss_pred CEEEEECCCCCCCCCCCC-CHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCCE----------EECCCCC-CH
Q ss_conf 069985276311566787-21489899999875002335555311047987886367417----------8166655-87
Q gi|254780833|r 170 DMMMVLDVSLSMNDHFGP-GMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV----------QTFPLAW-GV 237 (371)
Q Consensus 170 di~~viD~SgSm~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~----------~~~~lt~-~~ 237 (371)
T Consensus 3 ~ivflID~s~sM~~~~~~~~~s~~~~al~~i~~~~~~k---iis~~~d~vGvv~~~T~~~~n~~~~~~i~vl~~l~~~~a 79 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSK---IISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGA 79 (218)
T ss_pred EEEEEEECCHHHCCCCCCCCCCHHHHHHHHHHHHHHHH---EECCCCCEEEEEEECCCCCCCCCCCCEEEEEECCCCCCH
T ss_conf 79999979977847767888883999999999999865---067899869999976788888789872699633887677
Q ss_pred HHHHHHHHCCCC-----------CCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCCCCC--HHH
Q ss_conf 899999740156-----------8874564237889999874211012346777666169999840458888889--789
Q gi|254780833|r 238 QHIQEKINRLIF-----------GSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYKKYIIFLTDGENSSPNID--NKE 304 (371)
Q Consensus 238 ~~~~~~i~~l~~-----------~g~T~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~ivl~TDG~~~~~~~~--~~~ 304 (371)
T Consensus 80 ~~i~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~~~~~f~~~---------~~~~~~krI~lfTdnD~P~~~~~~~~~~ 150 (218)
T cd01458 80 ERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKG---------KKKKSHKRIFLFTNNDDPHGGDSIKDSQ 150 (218)
T ss_pred HHHHHHHHHHHCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHC---------CCCCCCCEEEEECCCCCCCCCCHHHHHH
T ss_conf 9999999986010235566448888867999999999999855---------5345777799986899899988799999
Q ss_pred HHHHHHHHHHCCCEEEEEEECCCC---C-HHHHHHHC
Q ss_conf 999999999789879999941864---2-79899833
Q gi|254780833|r 305 SLFYCNEAKRRGAIVYAIGVQAEA---A-DQFLKNCA 337 (371)
Q Consensus 305 ~~~~c~~~k~~gi~i~tIg~~~~~---~-~~~l~~cA 337 (371)
T Consensus 151 a~~~a~DL~d~gI~iel~~l~~~~~~Fd~s~FY~dii 187 (218)
T cd01458 151 AAVKAEDLKDKGIELELFPLSSPGKKFDVSKFYKDII 187 (218)
T ss_pred HHHHHHHHHHCCCEEEEEECCCCCCCCCCHHHHHHHH
T ss_conf 9999988987796899984489988688067788752